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Commits on Apr 15, 2019

• add forgotten -ldl

  

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• update Makefile and configure for bcftools rather than samtools

  

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Commits on Sep 21, 2017

• update NEWS file for upcoming release

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Commits on Jul 8, 2017

• convert: fix logic bug in gvcf2vcf

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Commits on Jun 19, 2017

• update NEWS for 1.5 release

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Commits on Jun 15, 2017

• Merge pull request samtools#629 from daviesrob/rdynamic

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Commits on Jun 13, 2017

• Merge pull request samtools#576 from samtools/feature/autoconf

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Commits on Jun 12, 2017

• add INSTALL text about ignoring or supressing AC_CONFIG_SUBDIRS warnings

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Commits on Jun 9, 2017

• update Makefile and configure for bcftools rather than samtools

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• bring over autoconf etc files from samtools unchanged

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Commits on May 8, 2017

• update NEWS for upcoming 1.4.1

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Commits on Apr 6, 2017

• silence some compiler warnings introduced in samtools#587

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Commits on Mar 13, 2017

• mpileup: fix error message typo

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Commits on Mar 10, 2017

• makefile: use htslib_vars

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Commits on Mar 8, 2017

• update man page

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• update some missing documentation

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• flesh out NEWS file for upcoming 1.4 including some previous release notes

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Commits on Feb 27, 2017

• mpileup: require the reference fasta by default

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• convert: use the new kputd from htslib

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Commits on Feb 23, 2017

• cleanup clang compiler warnings

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• makefile: use -Wl,-export_dynamic instead of -rdynamic on macOS

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• makefile: always link with -rdynamic/-ldl

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• index: update error message for failure to index

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Commits on Jan 13, 2017

• view: update trimming error check after samtools/htslib#453

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Commits on Dec 5, 2016

• view: add test from trimming missing alleles

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Commits on Dec 2, 2016

• csq: clarify BCSQ format in VCF header

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Commits on Dec 1, 2016

• minor edits to csq docs

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Commits on Oct 11, 2016

• docs: re-add bcftools man page

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Commits on Sep 23, 2016

• Merge pull request samtools#485 from samtools/feature/gvcf2vcf

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• gvcf2vcf: support mpileup and GATK gVCFs

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• Merge pull request samtools#466 from kdmurray91/make-install-plugins

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• Merge pull request samtools#483 from samtools/feature/fill-from-fasta

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Commits on Sep 21, 2016

• plugin: new fill-from-fasta plugin to annotate vcf from a fasta file

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• Merge pull request samtools#486 from samtools/feature/plugin.mk

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Commits on Sep 19, 2016

• add plugin makefiles for ad-bias and setGT

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